ANNOUNCING THE AVAILABILITY OF PROMOTER SCAN version 1.50 for IBM DOS:
PROMOTER SCAN Version 1.50 for IBM DOS is now available, and also
available
for UNIX machines (works on Sun, SGI, DEC Alpha, IBM RS6000, and
others).
The IBM DOS version is identical to the UNIX version, except it uses a
little fancier text graphics and can only handle sequences up to 10kb
(the UNIX version will handle up to 50kb presently - and can be
boosted
if needed).
Improvements in version 1.50 (over version 1.00) are:
1) The correction of the over-prediction of TATA boxes (a bug reported
by Dr. James Fickett at Los Alamos National Lab).
2) An 2/3rds reduction in the number of false positives reported by
the program. Previously PROMOTER SCAN reported one false positive
in about 5600 bases; PROMOTER SCAN version 1.5 reports about one
false positive in 17,200 bases (while recognizing about 70% of
promoter sequences).
If you are interested in getting a copy of the program, send E-mail to
danp at biosci.cbs.umn.edu for instructions.
PROMOTER SCAN is designed to find putative eukaryotic Pol II promoter
sequences in primary DNA sequence data. This program is experimental
in nature, and should be used as an experimental tool. PROMOTER SCAN
is best used to locate regions in primary DNA sequence that might be
good candidate regions to further test for promoter functionality. At
this time, based upon test promoter and non-promoter sequence sets,
the program recognizes approximately 70% of all EPD primate promoter
sequences, with a false positive rate of about one in every 17,200
bases.
Please refer to:
Prestridge, D.S. (1995). Predicting Pol II Promoter Sequences Using
Transcription Factor Binding Sites. J Mol Biol 249(5):923-932.
If you have any additional questions, please let me know.
When requesting further information on how to obtain PROMOTER SCAN,
PLEASE SPECIFY UNIX OR IBM PC.
Sincerely,
Dan S. Prestridge
___________________________________________________________________________
Dan S. Prestridge, Ph.D. E-mail:
DANP at BIOSCI.UMN.EDU
Director Telephone: (612)
625-3744
Advanced Biosciences Computing Center Fax: (612) 625-5780
University of Minnesota
1479 Gortner Ave.
St. Paul, MN 55108
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